Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 184 of 250
Found at i:58061651 original size:14 final size:14
Alignment explanation
Indices: 58061616--58061645 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58061606 ATACTTTTAA
*
58061616 AAAATAAAAAATAC
1 AAAATATAAAATAC
58061630 AAAATATAAAATAC
1 AAAATATAAAATAC
58061644 AA
1 AA
58061646 TTTATATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATATAAAATAC
Found at i:58064608 original size:15 final size:16
Alignment explanation
Indices: 58064571--58064608 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58064561 TTTTCTCCTC
* *
58064571 TGTTGTTCATTTTTGG
1 TGTTTTTCATTTCTGG
58064587 TGTTTTTCATTTCTGG
1 TGTTTTTCATTTCTGG
58064603 -GTTTTT
1 TGTTTTT
58064609 TGTTGTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.05, C:0.08, G:0.21, T:0.66
Consensus pattern (16 bp):
TGTTTTTCATTTCTGG
Found at i:58069537 original size:31 final size:31
Alignment explanation
Indices: 58069501--58069561 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
58069491 TTGGTCACTG
** *
58069501 AACTATTTGAAAGTTTTCATTTAAGTCATTT
1 AACTATTCAAAAGTTTTCATTTAACTCATTT
*
58069532 AACTATTCAAAAGTTTTTATTTAACTCATT
1 AACTATTCAAAAGTTTTCATTTAACTCATT
58069562 GGGCTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAACTCATTT
Found at i:58075886 original size:13 final size:12
Alignment explanation
Indices: 58075868--58075893 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58075858 GAAAAGTATT
58075868 TTAAAAAAATGG
1 TTAAAAAAATGG
58075880 TTAAAAAAATGG
1 TTAAAAAAATGG
58075892 TT
1 TT
58075894 GCTATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
TTAAAAAAATGG
Found at i:58076157 original size:6 final size:6
Alignment explanation
Indices: 58076141--58076181 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
58076131 AATAAACAAG
*
58076141 TAAAA- TAAAAT TAAAAT ATGAAAT TAAAAT TAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT -TAAAAT TAAAAT TAAAAT TAAAA
58076182 CAAAGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (6 bp):
TAAAAT
Found at i:58076164 original size:13 final size:12
Alignment explanation
Indices: 58076141--58076181 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 12
58076131 AATAAACAAG
58076141 TAAAA-TAAAAT
1 TAAAATTAAAAT
*
58076152 TAAAATATGAAAT
1 TAAAAT-TAAAAT
58076165 TAAAATTAAAAT
1 TAAAATTAAAAT
58076177 TAAAA
1 TAAAA
58076182 CAAAGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 5 0.19
12 10 0.38
13 11 0.42
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAATTAAAAT
Found at i:58077600 original size:163 final size:156
Alignment explanation
Indices: 58077402--58077823 Score: 654
Period size: 154 Copynumber: 2.7 Consensus size: 156
58077392 CAAATAAACC
58077402 ATAAAATAAAAATTAAAA-TTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAGA
1 ATAAAATAAAAATTAAAATTTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAGA
*
58077466 TCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGATTCCAATGATCATTTCATAAT-TA
66 TCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGA-T----TGATCATTTCACAATGT-
* *
58077530 TATTTTTATTCTAATATGTAAAGCAAGAAAGTT
125 TATTTTTATTCTAATATATAAAGAAAGAAAG-T
58077563 ATAAAATAAAAATTAAAAATTTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAG
1 ATAAAATAAAAATT-AAAATTTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAG
* ** *
58077628 ATCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGATTGGTTGTTTCACAATGTTTTTT
65 ATCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGATTGATCATTTCACAATGTTATTT
58077693 TTATTCTAATATATAAAGAAAGAAAGT
130 TTATTCTAATATATAAAGAAAGAAAGT
* *
58077720 A-ATAA-AAAAATTGAAATTTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAGA
1 ATAAAATAAAAATTAAAATTTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAGA
*
58077783 TCTTAAGTCTGCCCCCTTAACCACTCGGGCAAACCAGCTGA
66 TCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGA
58077824 CTGTTCGTAC
Statistics
Matches: 248, Mismatches: 10, Indels: 13
0.92 0.04 0.05
Matches are distributed among these distances:
154 90 0.36
155 7 0.03
156 3 0.01
157 2 0.01
158 39 0.16
159 1 0.00
161 14 0.06
162 5 0.02
163 87 0.35
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (156 bp):
ATAAAATAAAAATTAAAATTTGCTGGCTGTGAGGTTCGAACTCACGCGCACTTATGTGCAGCAGA
TCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGATTGATCATTTCACAATGTTATTTT
TATTCTAATATATAAAGAAAGAAAGT
Found at i:58079608 original size:18 final size:18
Alignment explanation
Indices: 58079585--58079641 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
58079575 AAGGACCTCT
58079585 TCATCTTCATCCTCGGAA
1 TCATCTTCATCCTCGGAA
* *
58079603 TCATCTTCATCATCAGAA
1 TCATCTTCATCCTCGGAA
*
58079621 CCA-CTTCCATCCTCGGAA
1 TCATCTT-CATCCTCGGAA
58079639 TCA
1 TCA
58079642 CTATCATCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 3 0.09
18 29 0.91
ACGTcount: A:0.26, C:0.35, G:0.09, T:0.30
Consensus pattern (18 bp):
TCATCTTCATCCTCGGAA
Found at i:58079643 original size:18 final size:17
Alignment explanation
Indices: 58079589--58079649 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
58079579 ACCTCTTCAT
58079589 CTTCATCCTCGGAATCA
1 CTTCATCCTCGGAATCA
* * *
58079606 TCTTCATCATCAGAACCA
1 -CTTCATCCTCGGAATCA
58079624 CTTCCATCCTCGGAATCA
1 CTT-CATCCTCGGAATCA
58079642 CTATCATC
1 CT-TCATC
58079650 ATCATCGTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 3 0.09
18 31 0.89
19 1 0.03
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.30
Consensus pattern (17 bp):
CTTCATCCTCGGAATCA
Found at i:58091426 original size:26 final size:26
Alignment explanation
Indices: 58091390--58091445 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
58091380 TGAAATTCCA
58091390 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58091416 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58091442 ATCA
1 ATCA
58091446 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58097052 original size:131 final size:131
Alignment explanation
Indices: 58096804--58097438 Score: 377
Period size: 131 Copynumber: 4.8 Consensus size: 131
58096794 TAAGAATTCT
* * * * *
58096804 TTAAAACGAATGCGATATTCGATACTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTC-TGGAATCGTGCCCTAACGTGCTGGGTTGC
* * * *** ** *
58096869 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTTGAATTTTGCCCATGTCTTTTAAAAATC
65 AATTTCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATC
58096934 CC
130 CC
* **
58096936 TT-AAGCGAAGGTGATATGT-GATATTTGGCAATTCATGGAATCGTGCCCTAACGTGCTGGGTTG
1 TTAAAACGAAGGCAATAT-TCGATATTTGGCAATTC-TGGAATCGTGCCCTAACGTGCTGGGTTG
* * * **
58096999 CAATTTCTCATTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTCATGTCTTCTAAAAAT
64 CAATTTCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAAT
*
58097064 CCG
129 CCC
* * * * * * * **
58097067 TTAAAACGAAGGCAATATTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGCGCTGGGTTGTG
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTCTGGAATCGTGCCCTAACGTGCTGGGTTGCA
* ** * * * *** * *
58097132 ATTTCTCGTTTGCTCAAAACAATTGAATATTCCTTTAGGTTTTCACTCATGT-TTGTTAAAAA-C
66 ATTTCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTT-CTAAAAATC
*
58097195 CTT
130 C-C
** * ** * * * * *
58097198 TTAAAATAAAGG--ATGTTCGAGGTTTGGCGATT-TGAGAATCGTGCCCTATCATGTTAGGTTGC
1 TTAAAACGAAGGCAATATTCGATATTTGGCAATTCTG-GAATCGTGCCCTAACGTGCTGGGTTGC
** * * * * ** *** * * *
58097260 GCTTTTTCATTTGTTCTAAACGATCAAAGATCCCTTTGGAATTTCACTCACGTTTTCTAAAAA-C
65 AATTTCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATC
58097324 CC
130 CC
* * * * * * * * * * *
58097326 TTTAAAACGAAAGAAATGTTCGATGTTTGACAATTCGGGGAATAGTACCCTATCGTGCTGGATTA
1 -TTAAAACGAAGGCAATATTCGATATTTGGCAATTC-TGGAATCGTGCCCTAACGTGCTGGGTTG
* * * * * *
58097391 CAATTTCCCGTTTGTTCAAAATAATCGAATATCTCTTCAGAATTTCAC
64 CAATTTCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCAC
58097439 TCGTATTTCC
Statistics
Matches: 387, Mismatches: 104, Indels: 24
0.75 0.20 0.05
Matches are distributed among these distances:
128 1 0.00
129 92 0.24
130 6 0.02
131 206 0.53
132 81 0.21
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TTAAAACGAAGGCAATATTCGATATTTGGCAATTCTGGAATCGTGCCCTAACGTGCTGGGTTGCA
ATTTCTCGTTTGCTCAAAATAATCAAAGATCCCTTCAAAATTTCACCCATGTCTTCTAAAAATCC
C
Found at i:58102187 original size:87 final size:87
Alignment explanation
Indices: 58102041--58102214 Score: 312
Period size: 87 Copynumber: 2.0 Consensus size: 87
58102031 TTCCAAGTCA
*
58102041 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCTAA
1 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
*
58102106 CACGAGGGAAAACGCAGAGAGG
66 CACGAGGGAAAACACAGAGAGG
58102128 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
1 TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
* *
58102193 CATGAGGGAGAACACAGAGAGG
66 CACGAGGGAAAACACAGAGAGG
58102215 CCACAGTTCA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (87 bp):
TTCACCGTAAATCAACCCAAGATGGTGACCACCAATCAGCAAAGCTCTGTAAGACAAGAATCCAA
CACGAGGGAAAACACAGAGAGG
Found at i:58108124 original size:3 final size:3
Alignment explanation
Indices: 58108116--58108149 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
58108106 AAATCTGAAA
58108116 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
58108150 TGGAGAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58112645 original size:131 final size:131
Alignment explanation
Indices: 58112335--58112699 Score: 369
Period size: 131 Copynumber: 2.8 Consensus size: 131
58112325 TAAGAATTCT
* * * *
58112335 TTAAAACGAAGGCGATATTCGATACTTGGTAATTCGTGGAAT-AGTGCCCTAACGTGTTGGGTTG
1 TTAAAACGAAGGCGATATTCGATATTTGGCAATTCG-AGAATCA-TGCCCTAACGTGCTGGGTTG
* ** ** ** *
58112399 CAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTTGAATTTTGCCCATGTCTTTTAAAAAT
64 TAATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAAAATTTCACCCATGTCTTCTAAAAAT
58112464 CCC
129 CCC
* * * * *
58112467 TT-AAGCGAAAGTGATATAT-GATATTTGGCAATGC-ATGAAATCGTGCCCTAACGTGCTGGGTT
1 TTAAAACGAAGGCGATAT-TCGATATTTGGCAATTCGA-G-AATCATGCCCTAACGTGCTGGGTT
* * **
58112529 GTAATTTCTCGTTTGCTTAAAGTAATCAAATATCCCTTTAAAATTTCATTCATGTCTTCTAAAAA
63 GTAATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAAAATTTCACCCATGTCTTCTAAAAA
*
58112594 TCCG
128 TCCC
* * * * * * *
58112598 TTAAAACGAAGGCAATATTCGGTGTTTGACAATTCGAGAATCATGCCCTATCGCGCTGGGTTGTG
1 TTAAAACGAAGGCGATATTCGATATTTGGCAATTCGAGAATCATGCCCTAACGTGCTGGGTTGTA
** *
58112663 ATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTA
66 ATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTA
58112700 GGTTTTCACT
Statistics
Matches: 187, Mismatches: 39, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
130 1 0.01
131 159 0.85
132 26 0.14
133 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (131 bp):
TTAAAACGAAGGCGATATTCGATATTTGGCAATTCGAGAATCATGCCCTAACGTGCTGGGTTGTA
ATTTCTCGTTTGCTCAAAGTAATCGAATATCCCTTTAAAATTTCACCCATGTCTTCTAAAAATCC
C
Found at i:58112707 original size:131 final size:128
Alignment explanation
Indices: 58112505--58112953 Score: 352
Period size: 131 Copynumber: 3.4 Consensus size: 128
58112495 CAATGCATGA
* * * * ** * * *
58112505 AATCGTGCCCTAACGTGCTGGGTTGTAATTTCTCGTTTGCTTAAAGTAATCAAATATCCCTTTAA
1 AATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAG
** * *
58112570 AATTTCATTCATGTCTTCTAAAAATCCGTTAAAACGAAGGCAATATTCGGTGTTTGACAATTCGA
66 GTTTTCATTCATGT-TTCTAAAAA-CCTTTAAAACGAAGG-AATGTTCGGTGTTTGACAATTCGA
58112635 G
128 G
* **
58112636 AATCATGCCCTATCGCGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAG
1 AATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAG
* * * * * * *
58112701 GTTTTCACTCATGTTTGTTAAAAACCTTTTAAAACAAAGG-ATGTTAGAG-GTTTGGCGATTTGA
66 GTTTTCATTCATGTTT-CTAAAAACC-TTTAAAACGAAGGAATGTTCG-GTGTTTGACAATTCGA
58112764 G
128 G
* ** * * * * * * * *
58112765 AATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCTAAACGATCGAAGA-TCCCTTCG
1 AATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAG
* *
58112829 GAATTTT-ATTCAAAT-TTTCTAAAAACCCTTTAAAACGAAAGAAATGTTCGATGTTTGACAATT
66 G--TTTTCATTC--ATGTTTCTAAAAA-CCTTTAAAACG-AAGGAATGTTCGGTGTTTGACAATT
*
58112892 CGGGG
125 C-GAG
* * * * *
58112897 AAT-AGTACCCTATCGTGCTGGGTTACAATTTCCCGTTTGTTCAAAATAATCGAATAT
1 AATCA-TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATAT
58112954 CTCTTCAGAA
Statistics
Matches: 249, Mismatches: 55, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
128 7 0.03
129 80 0.32
130 17 0.07
131 100 0.40
132 45 0.18
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (128 bp):
AATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATTCCTTTAG
GTTTTCATTCATGTTTCTAAAAACCTTTAAAACGAAGGAATGTTCGGTGTTTGACAATTCGAG
Found at i:58114101 original size:44 final size:45
Alignment explanation
Indices: 58114018--58114121 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 45
58114008 TCCTACTGCA
* *
58114018 ACTTCAGGGAGATAAGAGTTGTAACTTCAACTTGTTCCACTAC-G
1 ACTTTAGGGAGATAAGAGTTGTAACTTCAACTTGCTCCACTACTG
*
58114062 ACTTTAGGGAGATAAG-GTCTGTAACTTCGA-TATGCTCCACTACTG
1 ACTTTAGGGAGATAAGAGT-TGTAACTTCAACT-TGCTCCACTACTG
*
58114107 -C-TTAGAGAGATAAGA
1 ACTTTAGGGAGATAAGA
58114122 TCTATAATCC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
43 15 0.29
44 36 0.69
45 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
ACTTTAGGGAGATAAGAGTTGTAACTTCAACTTGCTCCACTACTG
Found at i:58114195 original size:88 final size:88
Alignment explanation
Indices: 58114086--58114782 Score: 846
Period size: 88 Copynumber: 7.9 Consensus size: 88
58114076 AGGTCTGTAA
* * * ** * * * *
58114086 CTTCGATATGCTCCACTACTGCTTAGAGAGATAAGATCTATAATCCCCAACATGTTTCCCTATTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
* * *
58114151 ATTAGAGGGTTAAGGCTCA-CTGT
66 CTTAGGGGGTTAAGGCTCATC-AT
*
58114174 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
*
58114239 CTTAGGGGGTTAAGGCTTATCAT
66 CTTAGGGGGTTAAGGCTCATCAT
** * * * *
58114262 CTTCGATCTATTCCCCTACTGCTTAGGGTGATAAGATCTATAA-ATTCAGCCTGTTACCCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
* *
58114326 CTTAGGGGGTTAAGGCCCATCGT
66 CTTAGGGGGTTAAGGCTCATCAT
* *
58114349 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGGTCTATAATCTTCAGCCTGTTACCTTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
*
58114414 CTTAGGGGGTTAAGGCTTATCAT
66 CTTAGGGGGTTAAGGCTCATCAT
** * * ** * * * *
58114437 CTTCGATCTATTCCCCTACTGCTTAGGGTGGTAAGATCTGTAA-ATTCAGCTTGTTACTCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
* * * *
58114501 CTTATGGGGTTAATGCCCATCGT
66 CTTAGGGGGTTAAGGCTCATCAT
58114524 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
*
58114589 CTTAGGGGGTTAAGGCTTATCAT
66 CTTAGGGGGTTAAGGCTCATCAT
* * *
58114612 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATCTTTAGCATGTTACCCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
* *
58114677 CTCAGGGGGTTAAGGCTTATCAT
66 CTTAGGGGGTTAAGGCTCATCAT
* ** * * * *
58114700 CTTCGCTCTATTCC-CTTACTGCTTAGGGTGATAAGATCTGTAAAT-TTCTAACCTGTTACCCTA
1 CTTCGATCTGCTCCAC-TACTGCTTAGGGAGACAAGATCTAT-AATCTTC-AGCCTGTTACCCTA
*
58114763 CTGCTCAGGGGGTTAAGGCT
63 CTGCTTAGGGGGTTAAGGCT
58114783 TATGAATTCA
Statistics
Matches: 523, Mismatches: 80, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
87 149 0.28
88 338 0.65
89 36 0.07
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (88 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTG
CTTAGGGGGTTAAGGCTCATCAT
Found at i:58114264 original size:44 final size:44
Alignment explanation
Indices: 58114216--58114785 Score: 327
Period size: 44 Copynumber: 13.0 Consensus size: 44
58114206 AAGATCTATA
58114216 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * * *
58114260 ATCTTC-GATCTATTCCCCTACTGCTTAGGGTGATAA-GATCTAT-
1 ATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TATC
** **
58114303 AAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * ** *
58114347 GTCTTC-GATCTGCT-CCACTACTGCTTAGGGAGACAAGG-TCTATA
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-TATC
*
58114391 ATCTTCAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * *
58114435 ATCTTC-GATCTATTCCCCTACTGCTTAGGGTGG-TAAGATCTGTA--
1 ATCTTCAG-CCTGTTACCCTACTGCTTAGGG-GGTTAAG-GCT-TATC
* * * * * **
58114479 A-ATTCAGCTTGTTACTCTACTGCTTATGGGGTTAATGCCCATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * ** * *
58114522 GTCTTC-GATCTGCT-CCACTACTGCTTAGGGAGACAA-GATCTATA
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-TATC
58114566 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * ** * *
58114610 ATCTTC-GATCTGCT-CCGCTACTGCTTAGGGAGACAA-GATCTATA
1 ATCTTCAG-CCTGTTACC-CTACTGCTTAGGGGGTTAAGGCT-TATC
* * *
58114654 ATCTTTAGCATGTTACCCTACTGCTCAGGGGGTTAAGGCTTATC
1 ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
* * * * *
58114698 ATCTTC-GCTCTATT-CCCTTACTGCTTAGGGTGATAAGATCTGTA-A
1 ATCTTCAGC-CTGTTACCC-TACTGCTTAGGGGGTTAAG-GCT-TATC
* *
58114743 AT-TTCTAACCTGTTACCCTACTGCTCAGGGGGTTAAGGCTTAT
1 ATCTTC-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTAT
58114786 GAATTCACCG
Statistics
Matches: 382, Mismatches: 104, Indels: 80
0.67 0.18 0.14
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 73 0.19
44 255 0.67
45 42 0.11
46 8 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (44 bp):
ATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATC
Found at i:58114367 original size:175 final size:175
Alignment explanation
Indices: 58114101--58114785 Score: 937
Period size: 175 Copynumber: 3.9 Consensus size: 175
58114091 ATATGCTCCA
* * * * * * *
58114101 CTACTGCTTAGAGAGATAAGATCTAT-AATCCCCAACATGTTTCCCTATTGATTAGAGGGTTAAG
1 CTACTGCTTAGGGAGATAAGATCTATAAAT--TCAGCATGTTACCCTACTGCTTAGGGGGTTAAG
* *
58114165 GCTCA-CTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGT
64 GCCCATC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGT
58114229 TACCCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC
128 TACCCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC
* *
58114277 CTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTATAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGC
*
58114342 CCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGGTCTATAATCTTCAGCCTGTTAC
66 CCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTAC
*
58114407 CTTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC
131 CCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC
* * * * * * *
58114452 CTACTGCTTAGGGTGGTAAGATCTGTAAATTCAGCTTGTTACTCTACTGCTTATGGGGTTAATGC
1 CTACTGCTTAGGGAGATAAGATCTATAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGC
58114517 CCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTAC
66 CCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTAC
** *
58114582 CCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTGCTCCG
131 CCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC
* * * *
58114627 CTACTGCTTAGGGAGACAAGATCTATAATCTTTAGCATGTTACCCTACTGCTCAGGGGGTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTATAA-ATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGG
** * * ** * * * *
58114692 CTTATCATCTTCGCTCTATTCC-CTTACTGCTTAGGGTGATAAGATCTGTAAAT-TTCTAACCTG
65 CCCATCGTCTTCGATCTGCTCCAC-TACTGCTTAGGGAGACAAGATCTAT-AATCTTC-AGCCTG
*
58114755 TTACCCTACTGCTCAGGGGGTTAAGGCTTAT
127 TTACCCTACTGCTTAGGGGGTTAAGGCTTAT
58114786 GAATTCACCG
Statistics
Matches: 457, Mismatches: 46, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
175 321 0.70
176 95 0.21
177 41 0.09
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (175 bp):
CTACTGCTTAGGGAGATAAGATCTATAAATTCAGCATGTTACCCTACTGCTTAGGGGGTTAAGGC
CCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTAC
CCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC
Found at i:58114426 original size:263 final size:262
Alignment explanation
Indices: 58114086--58114785 Score: 918
Period size: 263 Copynumber: 2.7 Consensus size: 262
58114076 AGGTCTGTAA
* * * ** * * *
58114086 CTTCGATATGCTCCACTACTGCTTAGAGAGATAAGATCTATAATCCCCAACATGTTTCCCTATTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCATGTTACCCTACTG
* * * * * ** * * *
58114151 ATTAGAGGGTTAAGGCTCA-CTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTAT
66 CTTAGGGGGTTAAGGCTTATC-ATCTTCGATCTATTCC-CTACTGCTTAGGGTGATAAGATCTGT
* *
58114215 AATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTA
129 AAT-TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTACTCCACTA
* *
58114280 CTGCTTAGGGTGATAAGATCTATAA-ATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCC
193 CTGCTTAGGGAGACAAGATCTATAATATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCC
*
58114344 ATCGT
258 ATCAT
* * *
58114349 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGGTCTATAATCTTCAGCCTGTTACCTTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCATGTTACCCTACTG
*
58114414 CTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCCTACTGCTTAGGGTGGTAAGATCTGTA
66 CTTAGGGGGTTAAGGCTTATCATCTTCGATCTATT-CCCTACTGCTTAGGGTGATAAGATCTGTA
* * * * * ** * *
58114479 AATTCAGCTTGTTACTCTACTGCTTATGGGGTTAATGCCCATCGTCTTCGATCTGCTCCACTACT
130 ATTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTACTCCACTACT
* **
58114544 GCTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTAT
195 GCTTAGGGAGACAAGATCTATAATATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCAT
58114609 CAT
260 CAT
* *
58114612 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATCTTTAGCATGTTACCCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCATGTTACCCTACTG
* *
58114677 CTCAGGGGGTTAAGGCTTATCATCTTCGCTCTATTCCCTTACTGCTTAGGGTGATAAGATCTGTA
66 CTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCC-TACTGCTTAGGGTGATAAGATCTGT-
* *
58114742 AATTTCTAACCTGTTACCCTACTGCTCAGGGGGTTAAGGCTTAT
129 AATTTC-AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTAT
58114786 GAATTCACCG
Statistics
Matches: 375, Mismatches: 56, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
262 77 0.21
263 261 0.70
264 8 0.02
265 29 0.08
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (262 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATCTTCAGCATGTTACCCTACTG
CTTAGGGGGTTAAGGCTTATCATCTTCGATCTATTCCCTACTGCTTAGGGTGATAAGATCTGTAA
TTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCATCTTCGATCTACTCCACTACTG
CTTAGGGAGACAAGATCTATAATATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATC
AT
Found at i:58126485 original size:5 final size:5
Alignment explanation
Indices: 58126475--58126502 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
58126465 GATAAGAGCA
58126475 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
58126503 TGAATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58126838 original size:26 final size:26
Alignment explanation
Indices: 58126809--58126860 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
58126799 GATAATATGT
*
58126809 TAGTAATAATAACAATATAGTAATAG
1 TAGTAATAATAACAATAAAGTAATAG
* **
58126835 TAGTAGTAATAGTAATAAAGTAATAG
1 TAGTAATAATAACAATAAAGTAATAG
58126861 CAATAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.31
Consensus pattern (26 bp):
TAGTAATAATAACAATAAAGTAATAG
Found at i:58126897 original size:26 final size:26
Alignment explanation
Indices: 58126842--58126895 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
58126832 TAGTAGTAGT
58126842 AATAGTAATAAAGTAATAGCAATAAA
1 AATAGTAATAAAGTAATAGCAATAAA
* * *
58126868 AATAGTACTAATGTTAATAGTAATAAA
1 AATAGTAATAAAG-TAATAGCAATAAA
58126895 A
1 A
58126896 TAAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (26 bp):
AATAGTAATAAAGTAATAGCAATAAA
Found at i:58126978 original size:17 final size:18
Alignment explanation
Indices: 58126932--58126978 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
58126922 ACAATGATGT
58126932 AAATAATAATATATACATA
1 AAATAATAATATATA-ATA
* *
58126951 AAAGAAAAATATAT-ATA
1 AAATAATAATATATAATA
*
58126968 ATATAATAATA
1 AAATAATAATA
58126979 ACGATATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 11 0.48
19 12 0.52
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATAATAATATATAATA
Found at i:58127031 original size:3 final size:3
Alignment explanation
Indices: 58127010--58127100 Score: 78
Period size: 3 Copynumber: 30.0 Consensus size: 3
58127000 TAATGCTAAG
* * * *
58127010 ATA ATG ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATG A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
58127057 ATA ATTCA ATA ATA GTA ATA ATG ACA ATA ATA GA-A ATA ATA ATA
1 ATA A-T-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
58127101 GTGTTTGAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 2 0.03
3 62 0.90
4 3 0.04
5 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:58129866 original size:4 final size:4
Alignment explanation
Indices: 58129843--58129908 Score: 55
Period size: 4 Copynumber: 17.0 Consensus size: 4
58129833 TACAAATTGT
* * * * * *
58129843 TTTA TTTG TTTG TTTG TTTA TTTA TCTA TTTA TTTA -TTA TTTC TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
58129890 TTTA TTTA -TTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA
58129909 GAAAAAATCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 6 0.12
4 46 0.88
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:58129884 original size:19 final size:19
Alignment explanation
Indices: 58129860--58129903 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
58129850 GTTTGTTTGT
58129860 TTATTTATCTATTTATTTA
1 TTATTTATCTATTTATTTA
* * *
58129879 TTATTTCTTTCTTTATTTA
1 TTATTTATCTATTTATTTA
58129898 TTATTT
1 TTATTT
58129904 TTTTAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTATCTATTTATTTA
Found at i:58129998 original size:18 final size:18
Alignment explanation
Indices: 58129958--58129999 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
58129948 TCTTTGTTCA
*
58129958 TTTATTATTATTTTCATT
1 TTTATTATTATTTTAATT
*
58129976 ATTATT-TTATCTTTAATT
1 TTTATTATTAT-TTTAATT
58129994 TTTATT
1 TTTATT
58130000 CTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTAATT
Found at i:58130011 original size:21 final size:21
Alignment explanation
Indices: 58129974--58130013 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
58129964 ATTATTTTCA
58129974 TTATTATTTTATCTTTAATTT
1 TTATTATTTTATCTTTAATTT
*
58129995 TTATTCTTGTTAT-TTTAAT
1 TTATTATT-TTATCTTTAAT
58130014 ATTCCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTATTTTATCTTTAATTT
Found at i:58133791 original size:18 final size:18
Alignment explanation
Indices: 58133770--58133804 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58133760 TGAATGATAC
*
58133770 TGACAGTTACTGAATAAT
1 TGACAGATACTGAATAAT
*
58133788 TGACTGATACTGAATAA
1 TGACAGATACTGAATAA
58133805 CTAACTGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
TGACAGATACTGAATAAT
Found at i:58133811 original size:18 final size:17
Alignment explanation
Indices: 58133777--58133820 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
58133767 TACTGACAGT
* *
58133777 TACTGAATAATTGACTG
1 TACTGAATAACTAACTG
58133794 ATACTGAATAACTAACTG
1 -TACTGAATAACTAACTG
58133812 TCACTGAAT
1 T-ACTGAAT
58133821 TGAGACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (17 bp):
TACTGAATAACTAACTG
Found at i:58136753 original size:41 final size:41
Alignment explanation
Indices: 58136705--58136903 Score: 373
Period size: 41 Copynumber: 4.9 Consensus size: 41
58136695 TAGACTAATG
58136705 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
58136746 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
58136787 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
58136828 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
58136869 TTCGGACTATAAGTCTAGCAGGC-TAAGTGCCGGTG
1 TTCAGACTATAAGTCTAGCAGGCTTAA-TGCCGGTG
58136904 TATTGAATCA
Statistics
Matches: 156, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
40 3 0.02
41 153 0.98
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:58137162 original size:32 final size:31
Alignment explanation
Indices: 58137107--58137170 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
58137097 ATAGATATGT
58137107 ATATATATATATGTTGCATTCGGCATAGGTG
1 ATATATATATATGTTGCATTCGGCATAGGTG
* *
58137138 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
58137170 A
1 A
58137171 AAATAAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (31 bp):
ATATATATATATGTTGCATTCGGCATAGGTG
Found at i:58144527 original size:81 final size:82
Alignment explanation
Indices: 58144380--58144616 Score: 431
Period size: 81 Copynumber: 2.9 Consensus size: 82
58144370 TTTATCGTTA
* * *
58144380 GTGACATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAGTC
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAGTC
58144445 TAGCAGGCTTAATGCCG
66 TAGCAGGCTTAATGCCG
58144462 GTGACACATTT-AGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAGTC
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAGTC
58144526 TAGCAGGCTTAATGCCG
66 TAGCAGGCTTAATGCCG
*
58144543 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCGGACTATAAGTC
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAGTC
58144608 TAGCAGGCT
66 TAGCAGGCT
58144617 AAGAGCCGGT
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
81 80 0.53
82 70 0.47
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (82 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAAGTC
TAGCAGGCTTAATGCCG
Found at i:58144627 original size:41 final size:41
Alignment explanation
Indices: 58144380--58144616 Score: 431
Period size: 41 Copynumber: 5.8 Consensus size: 41
58144370 TTTATCGTTA
* * *
58144380 GTGACATAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58144421 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58144462 GTGACACATTT-AGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58144502 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
58144543 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
58144584 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
58144617 AAGAGCCGGT
Statistics
Matches: 191, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 40 0.21
41 151 0.79
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:58150120 original size:44 final size:44
Alignment explanation
Indices: 58150071--58150256 Score: 156
Period size: 44 Copynumber: 4.0 Consensus size: 44
58150061 CAATGAAACC
* * *
58150071 ACAAATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
* * *
58150115 ACAAATCTTGTCTCCATAAAGTTACAGTGGAGCAGATTAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
* * * * * *
58150159 ACGAATTTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTACAACTT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAA-G----A--T
* * *
58150210 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAACGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATT-AAA-GAT
58150256 A
1 A
58150257 AGTCTTACAC
Statistics
Matches: 113, Mismatches: 21, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
44 70 0.62
45 1 0.01
46 2 0.02
48 1 0.01
49 1 0.01
51 34 0.30
52 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTAAAGAT
Found at i:58150357 original size:145 final size:145
Alignment explanation
Indices: 58150166--58150622 Score: 711
Period size: 145 Copynumber: 3.2 Consensus size: 145
58150156 GATACGAATT
* * * *
58150166 TTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGGTACAACTTACAAATCTTATCTCCTTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTGAAG
* * * * *
58150231 TTGCAGTGGAGTAGATTGAAACGATAAGTCTTACACCTCTGAGGTTGTAGTAGGTCAGATTAAAT
66 TTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAAT
58150296 CTACCATAGCAAGTC
131 CTACCATAGCAAGTC
58150311 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTGAAG
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTGAAG
* *
58150376 TTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTGGTAAGTCGGATTAAAT
66 TTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAAT
*
58150441 CTACCATA--ACGTC
131 CTACCATAGCAAGTC
* * * * *
58150454 TTATCTCCCTGAAATTGCAGTGGAATATACTAAAGTTACAAGCTACAAATCTTATCTCCCTAAAG
1 TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTGAAG
* * *
58150519 TTGTAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGCAGTAGGTTGGATTAAAT
66 TTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAAT
58150584 CTACCATAGCAAGTC
131 CTACCATAGCAAGTC
*
58150599 TTATCTCCCTGAAGTTGTAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
58150623 GCAGATTGAA
Statistics
Matches: 285, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
143 132 0.46
145 153 0.54
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (145 bp):
TTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGGTACAAGTTACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAACGATAAGTCCTATACCTCTGAAGTTGTAGTAGGTCGGATTAAAT
CTACCATAGCAAGTC
Found at i:58150708 original size:44 final size:45
Alignment explanation
Indices: 58150589--58150708 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
58150579 TAAATCTACC
* *
58150589 ATAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
* * *
58150634 ATAGCAAATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAG
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
* * *
58150679 ATA-CGAGTCTCATCGCCCTGAAGTTGCAGT
1 ATAGCAAGTCTTATCTCCCTGAAGTTGCAGT
58150709 GGAATAGACC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 22 0.34
45 43 0.66
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
ATAGCAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG
Found at i:58152232 original size:4 final size:4
Alignment explanation
Indices: 58152223--58152293 Score: 72
Period size: 4 Copynumber: 18.0 Consensus size: 4
58152213 TACAAATTGT
* ** * * *
58152223 TTTA TTTA TTTA TTTG TTCG TTTA TTTA TCTA TTTA TCTA TTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
58152271 -TTA TTTA TTTA TTTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA
58152294 GAAAAAAATC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
3 3 0.06
4 51 0.94
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:58152277 original size:19 final size:20
Alignment explanation
Indices: 58152247--58152284 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
58152237 TGTTCGTTTA
58152247 TTTATCTATTTATCTATTTC
1 TTTATCTATTTATCTATTTC
*
58152267 TTTAT-TATTTATTTATTT
1 TTTATCTATTTATCTATTT
58152285 ATTTTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATCTATTTATCTATTTC
Found at i:58152384 original size:18 final size:18
Alignment explanation
Indices: 58152344--58152385 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
58152334 TCTTTGTTCA
*
58152344 TTTATTATTATTTTCATT
1 TTTATTATTATTTTAATT
*
58152362 ATTATT-TTATCTTTAATT
1 TTTATTATTAT-TTTAATT
58152380 TTTATT
1 TTTATT
58152386 CTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTATTATTTTAATT
Found at i:58158309 original size:25 final size:24
Alignment explanation
Indices: 58158280--58158329 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
58158270 TATCCCTTTA
* *
58158280 TTTTATAATTTTATTTCAATTGGTT
1 TTTTATAATTTT-TTTAAATTCGTT
*
58158305 TTTTATTATTTTTTTAAATTCGTT
1 TTTTATAATTTTTTTAAATTCGTT
58158329 T
1 T
58158330 CACATTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTTATAATTTTTTTAAATTCGTT
Found at i:58168906 original size:18 final size:18
Alignment explanation
Indices: 58168883--58168935 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
58168873 GATAAATCCT
58168883 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
** *
58168901 AATCAAGGATTGGCCCCC
1 AATCAAGGATTTACTCCC
*
58168919 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
58168936 TATATTAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:58174194 original size:176 final size:176
Alignment explanation
Indices: 58173898--58174521 Score: 724
Period size: 176 Copynumber: 3.5 Consensus size: 176
58173888 GAGTATACAT
** * *
58173898 GATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAA-AAGGTGAATCTTATCTCC
1 GATTGAAGATCTTATCTCCCTGAAGCAGCAGTGAAGCAGATCGAAAGACGGTGAATCTTATCTCC
* * * * * *
58173962 ACGTATCAGCAATGGAGTAGATTTTACTACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGTAGGT
66 ATGTATCGGCAATGGAGCAGATTTAAC-CCCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGT
* * *
58174027 TGAAGAATGAATCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTGAA
130 TGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* ** * *
58174074 GATTGAAGATCTTATCTCCCT-AAGCAGTAGCAAAGTAGATCGAAAGA-GGCGAATCTTATCTCC
1 GATTGAAGATCTTATCTCCCTGAAGCAGCAGTGAAGCAGATCGAAAGACGGTGAATCTTATCTCC
* * * * *
58174137 ATGTATCGGTAATGGAGCAAATTTAAGCCCCAAGCCTTATCTCTTTGAAGTAGCAAGAGAGCAGG
66 ATGTATCGGCAATGGAGCAGATTTAA-CCCC-AGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
*
58174202 TTGAAGAATGAGTCTTATCTTTTTGAGGTAGCAAGGAAGCAGACT-AA
129 TTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * * * * *
58174249 GAATTGAAGATTTTATCTCCCAG-AGACTGCAGTGGAGTAGATCTTCG-CAGACGGTGAATCTTA
1 G-ATTGAAGATCTTATCTCCCTGAAG-CAGCAGTGAAGCAGA---TCGAAAGACGGTGAATCTTA
* *
58174312 TCTCCATGTATCGGCAATAGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAG
61 TCTCCATGTATCGGCAATGGAGCAGATTTAACC-CCAGCCTCATCTCTCTGAGGTAGCAAGAGAG
* * **
58174377 CAGGTTGAAGAATGAGTCTTATCTTCTTGAGATAGCAAGGAAGCAAACTGTG
125 CAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* ** **
58174429 GATTGAGGATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATCGAAA-ATAGTGAATCTTATCTC
1 GATTGAAGATCTTATCTCCCTGAAGCAGCAGT-GAAGCAGATCGAAAGACGGTGAATCTTATCTC
*
58174492 TATGTATCGGCAATGGAGCAGATTTAACCC
65 CATGTATCGGCAATGGAGCAGATTTAACCC
58174522 ACCAACCTCA
Statistics
Matches: 377, Mismatches: 56, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
175 58 0.15
176 157 0.42
177 11 0.03
179 104 0.28
180 47 0.12
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (176 bp):
GATTGAAGATCTTATCTCCCTGAAGCAGCAGTGAAGCAGATCGAAAGACGGTGAATCTTATCTCC
ATGTATCGGCAATGGAGCAGATTTAACCCCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTT
GAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
Found at i:58175988 original size:25 final size:25
Alignment explanation
Indices: 58175959--58176008 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
58175949 TATCCCTTTA
*
58175959 TTTTATAATTTTATTTCAATT-GTTT
1 TTTTATAATTTT-TTTAAATTCGTTT
*
58175984 TTTTATTATTTTTTTAAATTCGTTT
1 TTTTATAATTTTTTTAAATTCGTTT
58176009 CACATTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTATAATTTTTTTAAATTCGTTT
Found at i:58179899 original size:21 final size:21
Alignment explanation
Indices: 58179875--58179915 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
58179865 TTGAGAACAA
58179875 GAGTTCTGAGTTTGGGAAGAT
1 GAGTTCTGAGTTTGGGAAGAT
58179896 GAGTTCTGAGTTTGGGAAGA
1 GAGTTCTGAGTTTGGGAAGA
58179916 AGATCGAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.39, T:0.32
Consensus pattern (21 bp):
GAGTTCTGAGTTTGGGAAGAT
Found at i:58189390 original size:43 final size:45
Alignment explanation
Indices: 58189328--58189413 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 45
58189318 CCTCATCTCT
**
58189328 CTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-A-ATCTTATCTTC
1 CTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGATCTTATCTTC
* *
58189371 CTGAGGTAGC-AGGGAAGCAGACTGAAGATTGAAGATCTTATCT
1 CTGAGGTAGCAAGAG-AGCAGACTGAAGAATGAAGATCTTATCT
58189414 CCCTAAGCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 23 0.64
44 1 0.03
45 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (45 bp):
CTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGATCTTATCTTC
Found at i:58189554 original size:176 final size:175
Alignment explanation
Indices: 58189222--58189844 Score: 687
Period size: 176 Copynumber: 3.5 Consensus size: 175
58189212 GAGTAAACAT
* *
58189222 GATTGAAGATCTTATCTCCCTGAAGTTGCAGTG--GAGCAGATCGAAAA-TGGTGAATCTTATCT
1 GATTGAAGATCTTATCTCCCTGAA---GCAGTGCAAAGCAGATCGAAAAGAGGTGAATCTTATCT
** * * *
58189284 CCATGTATTAGCAATGGAGTAGATTT-ACTACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAG
63 CCATGTATCGGCAATGGAGCAGATTTAAC-CCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
* * *
58189348 GTTGAAGAATGAATCTTATCTTCCTGAGGTAGCAGGGAAGCAGACTGAA
127 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
*
58189397 GATTGAAGATCTTATCTCCCT-AAGCAGTAGCAAAGCAGATC-AAAAGAGGCGAATCTTATCTCC
1 GATTGAAGATCTTATCTCCCTGAAGCAGT-GCAAAGCAGATCGAAAAGAGGTGAATCTTATCTCC
* * *
58189460 ATGTATTGGTAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGG
65 ATGTATCGGCAATGGAGCAGATTTAA-CCCC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
*
58189525 TTGAAGAATGAGTCTTATCTTTTTGAGGTAGCAAGGAAGCAGACT-AA
128 TTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * * * ****
58189572 GAATTGAAGATTTTATCTCCCAG-AG-ACTGCAATGGAGTAGATCTTCGCAGACGGTGAATCTTA
1 G-ATTGAAGATCTTATCTCCCTGAAGCAGTGCAA---AGCAGATC-GAAAAGA-GGTGAATCTTA
* *
58189635 TCTCCATGTATCGGCAATAGAGCAGATTTTACCACCAGCCTCT-TCTCTCTGAGGTAGCAAGAGA
60 TCTCCATGTATCGGCAATGGAGCAGATTTAACC-CCAGCCT-TATCTCTCTGAGGTAGCAAGAGA
* * * **
58189699 GCAGGTTGAAGAATGAGTCTTATCTTCTTGAGATAACAAGGAAGCAAACTGTG
123 GCAGGTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
* * *
58189752 GATTGAGGATCTTATCTCCCTGAAGTTGCAGTG-GAA-CAGATCGAAAATA-GTGAATCTTATCT
1 GATTGAAGATCTTATCTCCCTGAA---GCAGTGCAAAGCAGATCGAAAAGAGGTGAATCTTATCT
*
58189814 CTATGTATCGGCAATGGAGCAGATTTAACCC
63 CCATGTATCGGCAATGGAGCAGATTTAACCC
58189845 ACCAACCTCA
Statistics
Matches: 379, Mismatches: 46, Indels: 46
0.80 0.10 0.10
Matches are distributed among these distances:
171 5 0.01
172 1 0.00
173 4 0.01
174 50 0.13
175 30 0.08
176 133 0.35
177 7 0.02
178 2 0.01
179 99 0.26
180 43 0.11
183 2 0.01
184 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (175 bp):
GATTGAAGATCTTATCTCCCTGAAGCAGTGCAAAGCAGATCGAAAAGAGGTGAATCTTATCTCCA
TGTATCGGCAATGGAGCAGATTTAACCCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
AAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
Found at i:58191301 original size:25 final size:25
Alignment explanation
Indices: 58191272--58191321 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
58191262 TATCCCTTTA
*
58191272 TTTTATAATTTTATTTCAATT-GTTT
1 TTTTATAATTTT-TTTAAATTCGTTT
*
58191297 TTTTATTATTTTTTTAAATTCGTTT
1 TTTTATAATTTTTTTAAATTCGTTT
58191322 CACATTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTATAATTTTTTTAAATTCGTTT
Found at i:58191509 original size:17 final size:18
Alignment explanation
Indices: 58191468--58191529 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 18
58191458 GTTTTTATGC
58191468 ATTATTATATACATATAT
1 ATTATTATATACATATAT
* * *
58191486 ATAATTAT-TCCATGTAT
1 ATTATTATATACATATAT
58191503 ATTATTA-AT-C-T-TAT
1 ATTATTATATACATATAT
*
58191517 ATTATTTTATACA
1 ATTATTATATACA
58191530 CATAATTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
14 9 0.26
15 3 0.09
16 2 0.06
17 14 0.40
18 7 0.20
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTATTATATACATATAT
Found at i:58196518 original size:12 final size:12
Alignment explanation
Indices: 58196501--58196526 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58196491 TTTAAGGGGG
58196501 CTGGTAGGGGCC
1 CTGGTAGGGGCC
58196513 CTGGTAGGGGCC
1 CTGGTAGGGGCC
58196525 CT
1 CT
58196527 AGTCCCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.46, T:0.19
Consensus pattern (12 bp):
CTGGTAGGGGCC
Found at i:58201133 original size:48 final size:48
Alignment explanation
Indices: 58201074--58201295 Score: 241
Period size: 48 Copynumber: 4.6 Consensus size: 48
58201064 TATGTGTGCT
*
58201074 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
* * *
58201122 AGTGTATGACCATGTCTGGGACATGGCATCGGCAATG-TAACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-ACGAGAGCC
* ** * * * *
58201170 AGTGTAAGACCATGTGTGAAACATGGCATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATACGAGAGCC
* * * * * *
58201218 AGTGTAAGACCATGTCTTGGATATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
* *
58201266 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
58201296 AGCAATTCAC
Statistics
Matches: 142, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
47 3 0.02
48 137 0.96
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATACGAGAGCC
Found at i:58207804 original size:12 final size:12
Alignment explanation
Indices: 58207787--58207844 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
58207777 TCAGTTTAGT
58207787 TTTAATATTTAA
1 TTTAATATTTAA
*
58207799 TTTAATACTTAA
1 TTTAATATTTAA
58207811 TTT--T-TTTAA
1 TTTAATATTTAA
*
58207820 TTTGATATTTAA
1 TTTAATATTTAA
*
58207832 GTTTGAT-TTTAA
1 -TTTAATATTTAA
58207844 T
1 T
58207845 GTTTATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 7 0.17
10 1 0.03
11 2 0.05
12 24 0.60
13 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (12 bp):
TTTAATATTTAA
Found at i:58207838 original size:13 final size:12
Alignment explanation
Indices: 58207814--58207854 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
58207804 TACTTAATTT
58207814 TTTTAA-TTTGA
1 TTTTAAGTTTGA
58207825 TATTTAAGTTTGA
1 T-TTTAAGTTTGA
58207838 TTTTAATGTTT-A
1 TTTTAA-GTTTGA
58207850 TTTTA
1 TTTTA
58207855 GTATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 16 0.59
13 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (12 bp):
TTTTAAGTTTGA
Found at i:58209171 original size:13 final size:13
Alignment explanation
Indices: 58209153--58209177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58209143 ATTTACAAAG
58209153 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
58209166 GAAAAAGAAAAA
1 GAAAAAGAAAAA
58209178 CTAGGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:58210687 original size:17 final size:16
Alignment explanation
Indices: 58210650--58210683 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58210640 GAGAATAATC
58210650 AATTTTTATATAAATT
1 AATTTTTATATAAATT
* *
58210666 AATTTTTTTGTAAATT
1 AATTTTTATATAAATT
58210682 AA
1 AA
58210684 ATTTATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTTTTATATAAATT
Found at i:58212149 original size:23 final size:23
Alignment explanation
Indices: 58212101--58212149 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
58212091 TCCATTTCTT
*
58212101 TTATTTATATTATAAAATTTTTA
1 TTATTTATATTATAAAATTTTCA
* *
58212124 TTATATTATA-TATACACTTTTCA
1 TTAT-TTATATTATAAAATTTTCA
58212147 TTA
1 TTA
58212150 GTCGGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTATATTATAAAATTTTCA
Found at i:58213185 original size:11 final size:11
Alignment explanation
Indices: 58213169--58213198 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
58213159 AAAGAACACA
58213169 AAAGCAGAAAC
1 AAAGCAGAAAC
58213180 AAAGCAGAAAC
1 AAAGCAGAAAC
*
58213191 AAAACAGA
1 AAAGCAGA
58213199 GAAATGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAGCAGAAAC
Found at i:58214260 original size:18 final size:16
Alignment explanation
Indices: 58214222--58214266 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
58214212 TAAGTCTTCG
58214222 TTTATTTAATTATTTAA
1 TTTATTT-ATTATTTAA
58214239 -TTATTTATTATTATACA
1 TTTATTTATTATT-TA-A
58214256 TTTATTTATTA
1 TTTATTTATTA
58214267 CTCTTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 1 0.04
18 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATTTATTATTTAA
Found at i:58220847 original size:20 final size:20
Alignment explanation
Indices: 58220822--58220861 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
58220812 ATGATACTCT
*
58220822 GCATTCATGTAAATATCAGA
1 GCATTCATATAAATATCAGA
58220842 GCATTCATATAAATATCAGA
1 GCATTCATATAAATATCAGA
58220862 CATATACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATTCATATAAATATCAGA
Found at i:58221354 original size:44 final size:44
Alignment explanation
Indices: 58221268--58221355 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
58221258 ATGAATTCAC
* * **
58221268 AGTCTTATTTTTCTGAGGTAGCAAGAGATCAGGTTGAAGATTGA
1 AGTCTTATTTTCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGA
*
58221312 AGTCTTATTTTCCTGAGGTAGCAAG-GAAGCAGACTGAGGATTGA
1 AGTCTTATTTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGATTGA
58221356 CCATCCTATC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (44 bp):
AGTCTTATTTTCCTGAGGTAGCAAGAGAGCAGACTGAAGATTGA
Found at i:58221509 original size:42 final size:43
Alignment explanation
Indices: 58221453--58221777 Score: 173
Period size: 42 Copynumber: 7.5 Consensus size: 43
58221443 GTGAATATTG
* *
58221453 TCTCCCTAACCAGTAGTGGAGCAGATTTAAGTCAC-CATCCTA
1 TCTCCCTAACCAGTAGTGGAGCAGATTGAAGTCACACATCTTA
* * * ** * * * *
58221495 TCTCCCTAAGCAGTAATGAAATAGACTGAAGATTACAGATCTTG
1 TCTCCCTAACCAGTAGTGGAGCAGATTGAAG-TCACACATCTTA
* * * * *
58221539 TCTCCCTAA--AGTTGCAGTGGAACAGATCGAAGACGGCGA-ATCTTG
1 TCTCCCTAACCAG-T--AGTGGAGCAGATTGAAGTC-AC-ACATCTTA
* *
58221584 TCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCAC-CATCTTA
1 TCTCCCTAACCAGTAGTGGAGCAGATTGAAGTCACACATCTTA
* * ** * *
58221626 TCTCTCTAACCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTA
1 TCTCCCTAACCAGTAGTGGAGCAGATTGAAG-TCACACATCTTA
* * * * *
58221670 TCTCCCTGA--AGTTACAGTGGAACAGATCGAAGACGGCGA-ATCTTA
1 TCTCCCTAACCAG-T--AGTGGAGCAGATTGAAGTC-AC-ACATCTTA
* * *
58221715 TCTTCCTAACCAGTAGTGAAGCAGATTTAAGTCAC-CATCTTA
1 TCTCCCTAACCAGTAGTGGAGCAGATTGAAGTCACACATCTTA
**
58221757 TCTCCCTAAGTAGTAGTGGAG
1 TCTCCCTAACCAGTAGTGGAG
58221778 TAGGCTGAAG
Statistics
Matches: 208, Mismatches: 55, Indels: 40
0.69 0.18 0.13
Matches are distributed among these distances:
42 82 0.39
43 9 0.04
44 55 0.26
45 54 0.26
46 4 0.02
47 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTCCCTAACCAGTAGTGGAGCAGATTGAAGTCACACATCTTA
Found at i:58221589 original size:131 final size:131
Alignment explanation
Indices: 58221355--58221833 Score: 715
Period size: 131 Copynumber: 3.7 Consensus size: 131
58221345 CTGAGGATTG
* *
58221355 ACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
** * * *
58221420 TGCAGTGGAACAGATTAAAGATGGTGAATATTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
58221485 C
131 C
* * * * *
58221486 ACCATCCTATCTCCCTAAGCAGTAATGAAATAGACTGAAGATTACAGATCTTGTCTCCCTAAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
*
58221551 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGC
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
58221616 C
131 C
* * * *
58221617 ACCATCTTATCTCTCTAACCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTATCTCCCTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
* * * *
58221682 TACAGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCTAACCAGTAGTGAAGCAGATTTAAGT
66 TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
58221747 C
131 C
* * * **
58221748 ACCATCTTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCATTGAAGT
1 ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
*
58221813 TGCAGTGGAACAAATCGAAGA
66 TGCAGTGGAACAGATCGAAGA
58221834 ATGTGTGCCT
Statistics
Matches: 312, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 312 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (131 bp):
ACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
TGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGT
C
Found at i:58221932 original size:88 final size:88
Alignment explanation
Indices: 58221840--58222009 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
58221830 AAGAATGTGT
** * * * *
58221840 GCCTTAACCCTTTAAGCAATAGGGTAATAGGCTGAAAATTACATATCTTATCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTA
*
58221905 GTGGAGCAGATCGAAGACGATGA
66 GTGGAGCAGATCAAAGACGATGA
* **
58221928 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTGTAGATCTTATCTCCCTAAGAAGTA
1 GCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTA
58221993 GTGGAGCAGATCAAAGA
66 GTGGAGCAGATCAAAGA
58222010 TAACAAATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (88 bp):
GCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAAATTACAGATCTTATCTCCCTAAGAAGTA
GTGGAGCAGATCAAAGACGATGA
Found at i:58222241 original size:44 final size:44
Alignment explanation
Indices: 58222114--58222714 Score: 175
Period size: 44 Copynumber: 13.5 Consensus size: 44
58222104 CGTATTTCCT
* * * * * *
58222114 TGAAGTTCCAATGGAGTAGATCGAGGCTACAAATCTCT-TCTCCC
1 TGAAGTTGCAGTGGAGCAGATCGAAGCTACTAACCT-TATCTCCC
* * * * * * **
58222158 TGAAATCGCATTGGAGCAGAAT-AAAGATACCAATTTTATCTCCC
1 TGAAGTTGCAGTGGAGCAG-ATCGAAGCTACTAACCTTATCTCCC
*
58222202 TGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATCGAAGCTACTAACCTTATCTCCC
* * * * ** *
58222246 TGAAGTCGCAGTAGAACATG-TTGAATTTAC-AAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCA-GATCGAAGCTACTAA-CCTTATCTCCC
* * * ** * * * *
58222290 TGAAATTGTAGCGGAGCAGA-CTGAAAATAGCGAATCATATCTCTC
1 TGAAGTTGCAGTGGAGCAGATC-GAAGCTA-CTAACCTTATCTCCC
* * * * * * * *
58222335 TAAAGTTACAGTAGAGTAGAGT-AAAGCTA-TAAATCATATTTCCC
1 TGAAGTTGCAGTGGAGCAGA-TCGAAGCTACT-AACCTTATCTCCC
* * * *
58222379 TGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATCGAAGCTA-CTAACCTTATCTCCC
* * * ** **
58222424 TAAAATTGTAGTAAAGCAGAGTTAAAGCTA-TAAACCTTAT-TCCCC
1 TGAAGTTGCAGTGGAGCAGA-TCGAAGCTACT-AACCTTATCT-CCC
* * * * ** *
58222469 TGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC-TATCTCCT
1 TGAAGTTGCAGTGGAGCAGATCGAAGCTAC-TAACCTTATCTCCC
* * * ** *
58222513 TGAAGTTGCAGTAGAGCGGATCGAAGATGGTGAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATCGAAGCTACT-AACCTTATCTCCC
* * * * * *
58222558 TGAAGTTGTAGTGGAGTAGATTGAAGCCACAAACCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATCGAAGCTACTAACCTTATCTCCC
* * * ** * *
58222602 TGAAGTTGTATTGGGGCA-AGTTAAAGTTAC-AAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGA-TCGAAGCTACTAA-CCTTATCTCCC
* * ** * ** *
58222646 TGAAGTTGTAGTAGAGCAGA-CTGAAGAAAGTAGATTTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATC-GAAGCTACTA-ACCTTATCTCCC
* *
58222691 TGAAGTTGCAATAGAGCAGATCGA
1 TGAAGTTGCAGTGGAGCAGATCGA
58222715 GTTATAATTT
Statistics
Matches: 397, Mismatches: 130, Indels: 59
0.68 0.22 0.10
Matches are distributed among these distances:
43 11 0.03
44 237 0.60
45 138 0.35
46 11 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATCGAAGCTACTAACCTTATCTCCC
Found at i:58222381 original size:89 final size:90
Alignment explanation
Indices: 58222286--58222479 Score: 212
Period size: 89 Copynumber: 2.2 Consensus size: 90
58222276 AAGTCTTATC
* * * * *
58222286 TCCCTGAAATTGTAGCGGAGCAGA-CTGAAAATAGCGAATCATATCTCTCTAAAGTTACAGTAGA
1 TCCCTGAAATTGCAGCGGAGCAGATC-GAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAA
* *
58222350 GTAGAG-TAAAGCTATAAATCATATT
65 GCAGAGTTAAAGCTATAAACCATATT
* * * * * **
58222375 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGTAGTAAAG
1 TCCCTGAAATTGCAGCGGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAAG
*
58222440 CAGAGTTAAAGCTATAAACCTTATT
66 CAGAGTTAAAGCTATAAACCATATT
* *
58222465 CCCCTGAAGTTGCAG
1 TCCCTGAAATTGCAG
58222480 TGGGGCAGGT
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
89 55 0.63
90 32 0.37
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (90 bp):
TCCCTGAAATTGCAGCGGAGCAGATCGAAAATAGCAAACCATATCTCTCTAAAATTACAGTAAAG
CAGAGTTAAAGCTATAAACCATATT
Found at i:58222650 original size:133 final size:134
Alignment explanation
Indices: 58222375--58222662 Score: 346
Period size: 133 Copynumber: 2.2 Consensus size: 134
58222365 AAATCATATT
* *
58222375 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGTAGTAAAG
1 TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGTAGTAAAG
* * * * *
58222440 CAGAGTTAAAGCTATAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC
66 CAGAGTTAAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
58222505 TATC
131 TATC
* * ** * * * **
58222509 TCCTTGAAGTTGCAGTAGAGCGGATCGAAGATGGTGAATCTTATCTCCCTGAAGTTGTAGTGGAG
1 TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGTAGTAAAG
* * * * *
58222574 TAGA-TTGAAGCCACAAACCTTA-TCTCTCTGAAGTTGTATTGGGGCAAGTTAAAGTTACAAGTC
66 CAGAGTTAAAGCCACAAACCTTATTC-CCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTC
*
58222637 TTATC
130 CTATC
*
58222642 TCCCTGAAGTTGTAGTAGAGC
1 TCCCTGAAGTTGCAGTAGAGC
58222663 AGACTGAAGA
Statistics
Matches: 129, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
132 2 0.02
133 70 0.54
134 57 0.44
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (134 bp):
TCCCTGAAGTTGCAGTAGAGCGGATCGAAGATAGCAAACCTTATCTCCCTAAAATTGTAGTAAAG
CAGAGTTAAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
TATC
Found at i:58222672 original size:133 final size:133
Alignment explanation
Indices: 58222375--58222698 Score: 330
Period size: 133 Copynumber: 2.4 Consensus size: 133
58222365 AAATCATATT
* * * * * * * * * **
58222375 TCCCTGAAGTTGCAGTGGAGCGGATCGAAGATAGCAAACCTTATCTCTCTAAAATTGTAGTAAAG
1 TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAGATCTTATCTCCCTGAAGTTGTAGTGGAG
* * * * * * *
58222440 CAGAGTTAAAGCTATAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACATGTCC
66 TAGA-TTGAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCC
58222505 TATC
130 TATC
* * **
58222509 TCCTTGAAGTTGCAGTAGAGCGGATCGAAGATGGT-GAATCTTATCTCCCTGAAGTTGTAGTGGA
1 TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAG-ATCTTATCTCCCTGAAGTTGTAGTGGA
* * *
58222573 GTAGATTGAAGCCACAAACCTTA-TCTCTCTGAAGTTGTATTGGGGCAAGTTAAAGTTACAAGTC
65 GTAGATTGAAGCCACAAACCTTATTC-CCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTC
*
58222637 TTATC
129 CTATC
* * *
58222642 TCCCTGAAGTTGTAGTAGAGCAGA-CTGAAGAAAGTAGATTTTATCTCCTTGAAGTTG
1 TCCCTGAAGTTGCAGTAGAGCAGATC-GAAGAAAGTAGATCTTATCTCCCTGAAGTTG
58222699 CAATAGAGCA
Statistics
Matches: 157, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
132 3 0.02
133 97 0.62
134 57 0.36
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (133 bp):
TCCCTGAAGTTGCAGTAGAGCAGATCGAAGAAAGTAGATCTTATCTCCCTGAAGTTGTAGTGGAG
TAGATTGAAGCCACAAACCTTATTCCCCTGAAGTTGCAGTGGGGCAAGTTAAAGTTACAAGTCCT
ATC
Found at i:58224827 original size:14 final size:15
Alignment explanation
Indices: 58224808--58224836 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58224798 ACATCATGTA
58224808 TATTTATTT-TTATT
1 TATTTATTTATTATT
58224822 TATTTATTTATTATT
1 TATTTATTTATTATT
58224837 CTATACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATTTATTATT
Found at i:58226321 original size:53 final size:53
Alignment explanation
Indices: 58226224--58226373 Score: 255
Period size: 53 Copynumber: 2.8 Consensus size: 53
58226214 AGCATCAAAT
* *
58226224 GATTTCCTTGCATTCAACAAACTTATAAAGATTGTAGCTCAAATTTATAAATAA
1 GATTTCTTTGCATTCAACAAACTT-TAGAGATTGTAGCTCAAATTTATAAATAA
* *
58226278 GGTTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTTATAAATAA
1 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAATTTATAAATAA
58226331 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAAT
1 GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAAT
58226374 ATCTAGCATT
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 68 0.76
54 22 0.24
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (53 bp):
GATTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTCAAATTTATAAATAA
Found at i:58228210 original size:14 final size:14
Alignment explanation
Indices: 58228191--58228218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58228181 ATCCAAGAAT
58228191 GCATTAATACATAA
1 GCATTAATACATAA
58228205 GCATTAATACATAA
1 GCATTAATACATAA
58228219 ACATCAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
GCATTAATACATAA
Found at i:58229670 original size:43 final size:43
Alignment explanation
Indices: 58229538--58229702 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
58229528 AGTTCATACA
* * * *
58229538 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT-ATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAAT-G
* * * **
58229580 ATGCCGATAG-CCCAG-CTATGGTCTTACACGAAATCAAATAACA
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACGTAATCACATAATG
58229623 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAATG
** * *
58229666 ATGCCAATGT-CCAGACATTCTCTTACACATAAACACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
58229703 ACTCGTTAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.29
43 69 0.69
44 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAATG
Found at i:58234565 original size:10 final size:10
Alignment explanation
Indices: 58234552--58234576 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58234542 CTAAGGGTGG
58234552 AAAATGGCTT
1 AAAATGGCTT
58234562 AAAATGGCTT
1 AAAATGGCTT
58234572 AAAAT
1 AAAAT
58234577 AGCCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (10 bp):
AAAATGGCTT
Found at i:58236820 original size:41 final size:41
Alignment explanation
Indices: 58236763--58236842 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
58236753 GATTATGTGA
* *
58236763 TCCGGGTGCTGGTGTTGTATGTCTTACCAATGGTTGAGTAT
1 TCCGGGTGCTGGTGTTGTATATCTTACCAATAGTTGAGTAT
58236804 TCCGGGTGCTGGTGTTGTATATCTTACCAATAGTTGAGT
1 TCCGGGTGCTGGTGTTGTATATCTTACCAATAGTTGAGT
58236843 GAACAGGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.39
Consensus pattern (41 bp):
TCCGGGTGCTGGTGTTGTATATCTTACCAATAGTTGAGTAT
Found at i:58238906 original size:15 final size:15
Alignment explanation
Indices: 58238886--58238917 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
58238876 AAAATATGGG
58238886 GCCGAAGAGTTTAGA
1 GCCGAAGAGTTTAGA
58238901 GCCGAAGAGTTTAGA
1 GCCGAAGAGTTTAGA
58238916 GC
1 GC
58238918 TACTATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (15 bp):
GCCGAAGAGTTTAGA
Found at i:58246922 original size:20 final size:21
Alignment explanation
Indices: 58246873--58246923 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
58246863 TAACCAACTA
58246873 TTTTA-AGAAAAACCATTAAT
1 TTTTAGAGAAAAACCATTAAT
* *
58246893 ATTTAG-GAAAAACC-TTAGT
1 TTTTAGAGAAAAACCATTAAT
58246912 TTTTAGAGAAAA
1 TTTTAGAGAAAA
58246924 CTCGTGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (21 bp):
TTTTAGAGAAAAACCATTAAT
Found at i:58252151 original size:22 final size:22
Alignment explanation
Indices: 58252105--58252152 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
58252095 TTCAAAGGGA
*
58252105 AAAAATGTAAATAATAAAATTG
1 AAAAATGTAAATAATAAAATAG
58252127 AAAAATGCTAAA-AATAATAA-AG
1 AAAAATG-TAAATAATAA-AATAG
58252149 AAAA
1 AAAA
58252153 CTTAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (22 bp):
AAAAATGTAAATAATAAAATAG
Found at i:58255124 original size:27 final size:28
Alignment explanation
Indices: 58255094--58255196 Score: 99
Period size: 27 Copynumber: 3.8 Consensus size: 28
58255084 AGGAAGCGTC
*
58255094 CTGGTGGCTATGCCACAATTATTT-GA-T
1 CTGGTGGCTCTGCCAC-ATTATTTCGATT
*
58255121 CTGGTGGCTCTGCCACA-TATTTCTATT
1 CTGGTGGCTCTGCCACATTATTTCGATT
*
58255148 CTGGTGGCTCTGCCACGATTATCT-GTATT
1 CTGGTGGCTCTGCCAC-ATTATTTCG-ATT
* *
58255177 -TGGTGACTCTGTCACATTAT
1 CTGGTGGCTCTGCCACATTAT
58255197 CTGTTCTGGC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
25 5 0.08
26 2 0.03
27 37 0.57
28 14 0.22
29 7 0.11
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACATTATTTCGATT
Found at i:58255204 original size:54 final size:54
Alignment explanation
Indices: 58255094--58255205 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
58255084 AGGAAGCGTC
* * *
58255094 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATTTCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * * *
58255148 CTGGTGGCTCTGCCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
58255202 CTGG
1 CTGG
58255206 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:58256201 original size:10 final size:9
Alignment explanation
Indices: 58256186--58256210 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58256176 AAACAATTTT
58256186 AAAAAAAAG
1 AAAAAAAAG
58256195 AAAAAAAAG
1 AAAAAAAAG
58256204 AAAAAAA
1 AAAAAAA
58256211 TTTGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:58263011 original size:27 final size:27
Alignment explanation
Indices: 58262955--58263060 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
58262945 AGGAAGCGTC
*
58262955 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* **
58262982 CTGGTGGCTCTGCTACATATT-TCTTTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
58263009 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
58263037 CTGGTGACTCTGTCAC-ATTATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
58263061 TTTTGGCAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.05
27 45 0.68
28 18 0.27
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:58269258 original size:55 final size:53
Alignment explanation
Indices: 58269133--58269329 Score: 216
Period size: 55 Copynumber: 3.6 Consensus size: 53
58269123 AACTTACCAT
* * * *
58269133 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCATAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
58269186 TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
** * * * *
58269241 TGCCATGTATTGACATGGTCTTACATGATTTCCTTGCATTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
58269295 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
58269330 ATCTTACCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 38 0.32
55 42 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:58269571 original size:44 final size:44
Alignment explanation
Indices: 58269522--58269605 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
58269512 TCCTTAACCG
*
58269522 TCAATTCCTCCTTAA-ATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAATATG-CATGGTAT-AACCATGGACTTTTCCA
* *
58269566 TCAATTCTTCCTTAATTTGCATGGTATAACCATGGACTTT
1 TCAATTCCTCCTTAATATGCATGGTATAACCATGGACTTT
58269606 GAGATATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.06
44 31 0.89
45 2 0.06
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAATATGCATGGTATAACCATGGACTTTTCCA
Found at i:58278492 original size:37 final size:37
Alignment explanation
Indices: 58278433--58278534 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
58278423 AGCTCAGACG
* *
58278433 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58278470 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58278507 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
58278535 TAGAGCTCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58278827 original size:49 final size:49
Alignment explanation
Indices: 58278653--58279162 Score: 801
Period size: 49 Copynumber: 10.7 Consensus size: 49
58278643 CCCTTCGGGA
* * * * *
58278653 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58278700 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58278747 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58278794 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58278843 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58278890 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58278939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58278988 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58279037 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58279084 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58279133 CTTATCAC--ATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
58279163 TCAAATATAC
Statistics
Matches: 432, Mismatches: 23, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 199 0.46
49 232 0.54
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58278850 original size:96 final size:96
Alignment explanation
Indices: 58278653--58279162 Score: 844
Period size: 96 Copynumber: 5.3 Consensus size: 96
58278643 CCCTTCGGGA
* * * * * * * *
58278653 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
58278716 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58278747 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
58278812 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58278843 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
58278908 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58278939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
58279004 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
58279037 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
58279102 ACTTTCACATTCATCACATCGGCTATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58279133 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
58279163 TCAAATATAC
Statistics
Matches: 392, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
94 47 0.12
96 251 0.64
98 94 0.24
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58281076 original size:56 final size:56
Alignment explanation
Indices: 58281009--58281128 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
58280999 TATTAGTTTA
58281009 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
58281065 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58281121 TTGCCCAT
1 TTGCCCAT
58281129 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58284975 original size:24 final size:24
Alignment explanation
Indices: 58284948--58284995 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
58284938 CTAGAAAACT
58284948 AACTTCACGCAACCAGAATTCACA
1 AACTTCACGCAACCAGAATTCACA
*
58284972 AACTTCGCGCAACCAGAATTCACA
1 AACTTCACGCAACCAGAATTCACA
58284996 TTTACTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (24 bp):
AACTTCACGCAACCAGAATTCACA
Found at i:58286228 original size:27 final size:27
Alignment explanation
Indices: 58286177--58286229 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
58286167 ACAATCATAC
*
58286177 ATCTCATAAGGGCATAATAGTCATTTT
1 ATCTCATAAGGGCATAATAGACATTTT
58286204 ATCTCAT-AGAGGCATAACT-GACATTT
1 ATCTCATAAG-GGCATAA-TAGACATTT
58286230 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.09
27 20 0.87
28 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (27 bp):
ATCTCATAAGGGCATAATAGACATTTT
Found at i:58286374 original size:18 final size:17
Alignment explanation
Indices: 58286348--58286381 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58286338 CACAATGGAG
58286348 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
58286366 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
58286382 AGTCCAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:58299257 original size:61 final size:61
Alignment explanation
Indices: 58299145--58299265 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 61
58299135 AATCGACACG
* * * *
58299145 GCCTGGACTTCCTTACATGGGTAGACCACACACCCGTGTAGTTTTACTAGACTCTAACATA
1 GCCTAGACTTCCTTACATGGGTAGACCACACACCCGTGTACTTTCAATAGACTCTAACATA
*
58299206 GCCTAGACTTCCTTACATGGGTAGACCACACGCCCGTGT-CTATTCAATAGACTCTAACAT
1 GCCTAGACTTCCTTACATGGGTAGACCACACACCCGTGTACT-TTCAATAGACTCTAACAT
58299266 GGTTTGAAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (61 bp):
GCCTAGACTTCCTTACATGGGTAGACCACACACCCGTGTACTTTCAATAGACTCTAACATA
Found at i:58323303 original size:19 final size:20
Alignment explanation
Indices: 58323271--58323308 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
58323261 TGTTTAAAAT
*
58323271 TTTTTTATTATTATGTTATA
1 TTTTTAATTATTATGTTATA
*
58323291 TTTTTAATT-TTATTTTAT
1 TTTTTAATTATTATGTTAT
58323309 TTGAAGACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTAATTATTATGTTATA
Found at i:58326364 original size:27 final size:26
Alignment explanation
Indices: 58326334--58326393 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
58326324 TTAGTTTACC
* *
58326334 AATTACAGAAATGCCCTCGACTTGTAA
1 AATTACA-AAATACCCTCGACTTATAA
* *
58326361 AATTACCAAAGTACCCTCGATTTATAA
1 AATTA-CAAAATACCCTCGACTTATAA
58326388 AATTAC
1 AATTAC
58326394 TATTTTACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
AATTACAAAATACCCTCGACTTATAA
Found at i:58326402 original size:27 final size:27
Alignment explanation
Indices: 58326372--58326463 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
58326362 ATTACCAAAG
* *
58326372 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
58326399 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
58326426 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
58326453 TACCCTCGATT
1 TACCCTCGATT
58326464 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:58326525 original size:27 final size:27
Alignment explanation
Indices: 58326495--58326593 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
58326485 TATAGGGTAG
58326495 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
58326522 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
58326549 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
*
58326576 AATTACCAAAATGCCCCT
1 AATTACCAAAATACCCCT
58326594 GATTTACAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.05
27 53 0.88
28 4 0.07
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:58326606 original size:54 final size:54
Alignment explanation
Indices: 58326495--58326606 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
58326485 TATAGGGTAG
* * ***
58326495 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* * *
58326549 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATGCCCCTGATTTACAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCACTGATTTACAA
58326603 AATT
1 AATT
58326607 TTAGAAATAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 4 0.08
54 45 0.92
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:58326614 original size:54 final size:54
Alignment explanation
Indices: 58326515--58326675 Score: 135
Period size: 54 Copynumber: 2.9 Consensus size: 54
58326505 ATACCCCTAG
* *** *
58326515 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAA
* * ** * *
58326569 TTTGTAAAATTACCAAAATGCCCCTGATTTACAAAATTTTAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCC-TCAA
* * * * **
58326624 TTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTATTGAAATACCCT
1 TTTGT-AAAATTACCA-AAATACCACTGATTTACAAAATTACAGAAATACCCT
58326676 TGGTTTGTAG
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
54 41 0.48
55 8 0.09
56 36 0.42
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAA
Found at i:58326669 original size:27 final size:27
Alignment explanation
Indices: 58326596--58326681 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
58326586 ATGCCCCTGA
*
58326596 TTTACAAAATT-TTAGAAATACCCTTGAC
1 TTTACAAAATTATT-GAAATACCCTTG-G
* *
58326624 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATTGAAATACCCTTGG
58326652 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATTGAAATACCCTTGG
58326679 TTT
1 TTT
58326682 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 24 0.49
28 6 0.12
29 18 0.37
30 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (27 bp):
TTTACAAAATTATTGAAATACCCTTGG
Found at i:58327653 original size:25 final size:25
Alignment explanation
Indices: 58327609--58327703 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
58327599 AGGAAGTGCT
*
58327609 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
58327634 AAAAGGGCTTTACCCTAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CCG
*
58327660 AAAA-GGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
58327683 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
58327704 ATTAAAAGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.02
24 3 0.05
25 49 0.83
26 6 0.10
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:58327716 original size:24 final size:25
Alignment explanation
Indices: 58327610--58327730 Score: 92
Period size: 25 Copynumber: 4.9 Consensus size: 25
58327600 GGAAGTGCTA
* *
58327610 AAAG-GGCTCTGCCCCAGTT-TACCG
1 AAAGAGGCTTTGCCCCAGTTAT-CAG
* *
58327634 AAA-AGGGCTTTACCCTAGTTTATCAG
1 AAAGA-GGCTTTGCCCCAG-TTATCAG
58327660 AAA-AGGCTTTGCCCCAGTTTATCAG
1 AAAGAGGCTTTGCCCCAG-TTATCAG
*
58327685 AAAG-GGCTTTGCCCCAGTTATTA-
1 AAAGAGGCTTTGCCCCAGTTATCAG
**
58327708 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
58327731 ATGATAAAGC
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
23 4 0.05
24 15 0.19
25 53 0.65
26 8 0.10
27 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAGAGGCTTTGCCCCAGTTATCAG
Found at i:58327910 original size:42 final size:42
Alignment explanation
Indices: 58327851--58327942 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
58327841 TAGTCTCCCC
*
58327851 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
58327893 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
58327935 AAATGGGC
1 AAATGGGC
58327943 CTAAGGGCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:58328004 original size:31 final size:31
Alignment explanation
Indices: 58327966--58328049 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
58327956 CGTTTACAAT
58327966 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
58327997 AAAGGCTTCAGCCCTGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
58328028 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
58328050 TCAAGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:58340220 original size:258 final size:258
Alignment explanation
Indices: 58339757--58340245 Score: 897
Period size: 258 Copynumber: 1.9 Consensus size: 258
58339747 ATCATTTACA
* *
58339757 AGCCAACTCAAATGGCTAAATCTATTACTAACATATACGAAAATGACCATAACTCCTATACATGC
1 AGCCAACTCAAATGGCTAAATCCATTACTAACATATACCAAAATGACCATAACTCCTATACATGC
58339822 CATATAACAAAATACATAAGTTCAAAAGTACCAAAGTGATAGCTTCATAGTGTGATGAGGTCTCC
66 CATATAACAAAATACATAAGTTCAAAAGTACCAAAGTGATAGCTTCATAGTGTGATGAGGTCTCC
** *
58339887 AACGACTCCCAATCTGAGCTAGCTTTGATATTCACTGTAAAACACAAAAAAGTAAACAGAGTAAG
131 AACGACTCCCAATCTGAGCTAGCTTCAATATTAACTGTAAAACACAAAAAAGTAAACAGAGTAAG
*
58339952 CTATAAAGCTTAGTAAGCTCGTATAGTTAATAAGTCATTTTGGTATATGTTAGTAATGGATTT
196 CTACAAAGCTTAGTAAGCTCGTATAGTTAATAAGTCATTTTGGTATATGTTAGTAATGGATTT
58340015 AGCCAACTCAAATGGCTAAATCCATTACTAACATATACCAAAATGACCATAACTCCTATACATGC
1 AGCCAACTCAAATGGCTAAATCCATTACTAACATATACCAAAATGACCATAACTCCTATACATGC
58340080 CATATAACAAAATACATAAGTTCAAAAGTACCAAAGTGATAGCTTCATAGTGTGATGAGGTCTCC
66 CATATAACAAAATACATAAGTTCAAAAGTACCAAAGTGATAGCTTCATAGTGTGATGAGGTCTCC
* * *
58340145 GACGACTTCCAATCTGAGCTAGCTTCAATATTAACTGTAAAACACAAAAAAGTAAATAGAGTAAG
131 AACGACTCCCAATCTGAGCTAGCTTCAATATTAACTGTAAAACACAAAAAAGTAAACAGAGTAAG
58340210 CTACAAAGCTTAGTAAGCTCGTATAGTTAATAAGTC
196 CTACAAAGCTTAGTAAGCTCGTATAGTTAATAAGTC
58340246 TTACCATTCA
Statistics
Matches: 222, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
258 222 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (258 bp):
AGCCAACTCAAATGGCTAAATCCATTACTAACATATACCAAAATGACCATAACTCCTATACATGC
CATATAACAAAATACATAAGTTCAAAAGTACCAAAGTGATAGCTTCATAGTGTGATGAGGTCTCC
AACGACTCCCAATCTGAGCTAGCTTCAATATTAACTGTAAAACACAAAAAAGTAAACAGAGTAAG
CTACAAAGCTTAGTAAGCTCGTATAGTTAATAAGTCATTTTGGTATATGTTAGTAATGGATTT
Found at i:58351193 original size:17 final size:17
Alignment explanation
Indices: 58351152--58351193 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
58351142 TTATTTTTCT
* *
58351152 TTTATTTTTAAGATTCG
1 TTTATTTTTAAAATTCA
58351169 TTTATTTTTAAAATTCA
1 TTTATTTTTAAAATTCA
*
58351186 TTTGTTTT
1 TTTATTTT
58351194 CCTTTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTATTTTTAAAATTCA
Found at i:58354816 original size:7 final size:7
Alignment explanation
Indices: 58354800--58354830 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
58354790 TAATAATGTT
*
58354800 ATATATA
1 ATATAAA
58354807 ATATAAA
1 ATATAAA
58354814 ATATAAA
1 ATATAAA
58354821 ATATAAA
1 ATATAAA
58354828 ATA
1 ATA
58354831 AATTAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:58356805 original size:37 final size:37
Alignment explanation
Indices: 58356752--58356854 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
58356742 CGAATAGTCC
*
58356752 CCACACGTAGTTATCGGGTCTTACCCGGACAGAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAGAATCT
* *
58356789 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAGAATCT
*
58356826 CCACACGTAGTCATCAGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
58356855 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAGAATCT
Found at i:58357053 original size:48 final size:48
Alignment explanation
Indices: 58356995--58357133 Score: 260
Period size: 48 Copynumber: 2.9 Consensus size: 48
58356985 ATATACACAC
*
58356995 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58357043 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58357091 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
58357134 CATATATATT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:58360527 original size:40 final size:40
Alignment explanation
Indices: 58360483--58360669 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
58360473 CTAGCATGAT
*
58360483 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
58360523 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
58360563 TGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
58360603 TGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
58360643 TGCTCTTCGGGACTCAGCCCGGCTATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
58360670 TAACTCTCAA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:58361999 original size:38 final size:37
Alignment explanation
Indices: 58361945--58362048 Score: 172
Period size: 37 Copynumber: 2.8 Consensus size: 37
58361935 CGAATAGTCC
*
58361945 CCACACGTAGTTATCGGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATC-GGGTCTTACCCGGACAAAATCT
* *
58361983 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
58362020 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
58362049 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
37 48 0.77
38 14 0.23
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:58362247 original size:48 final size:48
Alignment explanation
Indices: 58362189--58362327 Score: 260
Period size: 48 Copynumber: 2.9 Consensus size: 48
58362179 ATATACACAC
*
58362189 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
58362237 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
58362285 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
58362328 CATATATATT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:58372678 original size:14 final size:15
Alignment explanation
Indices: 58372659--58372715 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
58372649 AATCTTTAAG
58372659 GATATG-CAATCTTA
1 GATATGACAATCTTA
58372673 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
58372690 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
58372709 GATATGA
1 GATATGA
58372716 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:58372699 original size:36 final size:38
Alignment explanation
Indices: 58372659--58372737 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
58372649 AATCTTTAAG
58372659 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
58372695 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
58372735 GAT
1 GAT
58372738 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:58372706 original size:19 final size:19
Alignment explanation
Indices: 58372659--58372737 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
58372649 AATCTTTAAG
58372659 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58372678 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58372695 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
58372714 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
58372735 GAT
1 GAT
58372738 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:58377941 original size:7 final size:7
Alignment explanation
Indices: 58377916--58377963 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
58377906 AAAAAAAGGG
58377916 GAAAAAA
1 GAAAAAA
*
58377923 -AGAAAA
1 GAAAAAA
58377929 GAAAAAGA
1 GAAAAA-A
58377937 GAAAAAA
1 GAAAAAA
*
58377944 -TAAAAA
1 GAAAAAA
58377950 GAAAAAA
1 GAAAAAA
58377957 GAAAAAA
1 GAAAAAA
58377964 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 10 0.29
7 17 0.50
8 7 0.21
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:58377941 original size:20 final size:20
Alignment explanation
Indices: 58377916--58377964 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
58377906 AAAAAAAGGG
58377916 GAAAAAA-AGAAAAGAAAAAGA
1 GAAAAAATA-AAAAGAAAAA-A
58377937 GAAAAAATAAAAAGAAAAAA
1 GAAAAAATAAAAAGAAAAAA
58377957 GAAAAAAT
1 GAAAAAAT
58377965 GGAGAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.33
21 17 0.63
22 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (20 bp):
GAAAAAATAAAAAGAAAAAA
Found at i:58377955 original size:13 final size:12
Alignment explanation
Indices: 58377917--58377962 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
58377907 AAAAAAGGGG
58377917 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
58377929 GAAAAAGAGAAAA
1 -AAAAAAAGAAAA
58377942 AATAAAAAGAAAA
1 AA-AAAAAGAAAA
58377955 AAGAAAAA
1 AA-AAAAA
58377963 ATGGAGAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 2 0.07
13 27 0.93
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:58379029 original size:44 final size:44
Alignment explanation
Indices: 58378966--58379597 Score: 302
Period size: 44 Copynumber: 14.4 Consensus size: 44
58378956 AATCCAAGAT
* * *
58378966 GATTTGGCATCTCTTTATTGGCAGAGAGTAGATTGAAGACAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* ** *
58379010 GATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* * *
58379054 GATTTGGCATCTCTGTATTCAGCGGAGAGCAGATCGAAGACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACA-A-CA
* * * * ** * * * *
58379101 GATTTGGCTTTTATGTGTTTAC-GTTGAAGCAAATCTAAG---A-T
1 GATTTGGCATCTCTGTATTGGCAG-AG-AGCAGATCGAAGACAACA
* * *
58379142 GATTTGGCATCTCTGTATTGGCAGAGAGAAGATTGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* * * * **
58379186 GAATTGGCATCTCTGTATTGGCAAAAAGCAGATCAAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* * *
58379230 GATTTGGCATCTTTGTATTCAGCGGAGAGCAGATCGAAGACATAGCTA
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACA-A-C-A
* * ** * *
58379278 -ATTTGGCTTCCACGTGT-TT-AAATTGA-AGCA-AGTCTAAG---A-T
1 GATTTGGCAT-CTC-TGTATTGGCA--GAGAGCAGA-TCGAAGACAACA
* * *
58379318 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* * * * ** *
58379362 GATTTGGCATCTCTATATTGGTAGAGAGCATATCAAAGATGATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
* * *
58379406 GATTTGGCATCTCTGTATTCGGCGGAGAGCAGATCGAAAACATAGCT
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAGACA-A-CA
* * * ** * *
58379453 GATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCTAAG---A-T
1 GATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCGAAGACAACA
* *
58379494 GATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAGA-A
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACA-ACA
* * * * *
58379538 GATTTGGCGTCTCTGTATTGTCAGAGAGCA-AGTTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGA-TCGAAGACAACA
*
58379582 GATTTGGCATCCCTGT
1 GATTTGGCATCTCTGT
58379598 GTTTACAAGG
Statistics
Matches: 439, Mismatches: 106, Indels: 86
0.70 0.17 0.14
Matches are distributed among these distances:
39 11 0.03
40 32 0.07
41 39 0.09
42 1 0.00
43 5 0.01
44 214 0.49
45 49 0.11
46 7 0.02
47 62 0.14
48 13 0.03
49 6 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAACA
Found at i:58379249 original size:176 final size:176
Alignment explanation
Indices: 58378949--58379597 Score: 926
Period size: 176 Copynumber: 3.7 Consensus size: 176
58378939 GTATTTATAC
* * * * *
58378949 TGAAGCAAATCCAAGATGATTTGGCATCTCTTTATTGGCAGAGAGTAGATTGAAGACAACAGATT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATT
* * *
58379014 TGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCAGCGG
66 TGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCAGCGG
** *
58379079 AGAGCAGATCGAAGACATAGCTGATTTGGCTTTTATGTGTTTACGT
131 AGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGT
* * *
58379125 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGAAGATTGAAGATAACAGAAT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATT
* * *
58379190 TGGCATCTCTGTATTGGCAAAAAGCAGATCAAAGATGACAGATTTGGCATCTTTGTATTCAGCGG
66 TGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCAGCGG
* **
58379255 AGAGCAGATCGAAGACATAGCTAATTTGGCTTCCACGTGTTTAAAT
131 AGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGT
* * *
58379301 TGAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATT
* * * * *
58379366 TGGCATCTCTATATTGGTAGAGAGCATATCAAAGATGATAGATTTGGCATCTCTGTATTCGGCGG
66 TGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCAGCGG
*
58379431 AGAGCAGATCGAAAACATAGCTGATTTGGCTTCCACGTGTTTACGT
131 AGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGT
* *
58379477 TGAAGCAAGTCTAAGATGATTTGGCATCTTTGTATTGGCAGAGAGCAGATCGAAGATAGA-AGAT
1 TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-ACAGAT
* * ** *
58379541 TTGGCGTCTCTGTATTGTCAGAGAGCA-AGTTGAAGAT-AGCAGATTTGGCATCCCTGT
65 TTGGCATCTCTGTATTGGCAGAGAGCAGA-TCAAAGATGA-CAGATTTGGCATCTCTGT
58379598 GTTTACAAGG
Statistics
Matches: 426, Mismatches: 44, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
175 2 0.00
176 424 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (176 bp):
TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATT
TGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTCAGCGG
AGAGCAGATCGAAGACATAGCTGATTTGGCTTCCACGTGTTTACGT
Found at i:58379620 original size:44 final size:44
Alignment explanation
Indices: 58379570--58379722 Score: 116
Period size: 44 Copynumber: 3.4 Consensus size: 44
58379560 AGAGAGCAAG
58379570 TTGAAGATAGCAGATTTGGCATCCCTGTGTTTACAAGGAACAGA
1 TTGAAGATAGCAGATTTGGCATCCCTGTGTTTACAAGGAACAGA
* * * * * * *
58379614 TCGAAGACGTAGTAGATCTGACATTCCTGTGCTTGC-AGCGAAGCAGA
1 TTGAAGA--TAGCAGATTTGGCATCCCTGTGTTTACAAG-GAA-CAGA
** * *
58379661 TTGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACA-A
1 TTGAAGATAGCAG-ATTTGGCATCCCTGTGTTTACAAGGAACAGA
*
58379703 GTTGAAGATAGTAGATTTGG
1 -TTGAAGATAGCAGATTTGG
58379723 TATCTCCATA
Statistics
Matches: 80, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
42 2 0.03
43 12 0.15
44 25 0.31
45 6 0.08
46 25 0.31
47 10 0.12
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
TTGAAGATAGCAGATTTGGCATCCCTGTGTTTACAAGGAACAGA
Found at i:58379989 original size:45 final size:45
Alignment explanation
Indices: 58379790--58379989 Score: 188
Period size: 45 Copynumber: 4.5 Consensus size: 45
58379780 TTTACATCGA
* * * *
58379790 AGCAGATCCAAGAT-GACAGATTTGACATCTTTGTATTAGACGAGG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGG
* * * * *
58379835 AGCATATCAGAGATAACATATTTGGCATCTCTGCATTAGACGGGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
** * * *
58379880 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
* * * * * *
58379924 AGTAGGTCGAAGATAACAGATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
*
58379969 AACAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
58379990 ATCGCCTTCC
Statistics
Matches: 125, Mismatches: 28, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
44 36 0.29
45 89 0.71
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
Done.